Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7e/a494e8e980c0e7d8e3b4d352c11387/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5a/1c73704a2fa6e61ef14f993d6cfb5f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5a/1c73704a2fa6e61ef14f993d6cfb5f/.command.run
==> STAGING COMPLETE (6 inputs)

mkdir -p failed for path /.config/matplotlib: [Errno 13] Permission denied: '/.config'
Matplotlib created a temporary cache directory at /tmp/matplotlib-err7lkh1 because there was an issue with the default path (/.config/matplotlib); it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing.
2026-06-02 18:35:54,397 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:35:55,196 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:35:55,364 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:36:10,412 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:36:10,489 - cnv_pipe.batch.run_model - INFO - Processing cluster 76 with 186 probes
2026-06-02 18:36:10,870 - cnv_pipe.batch.run_model.cluster76 - INFO - Child process started for cluster 76 with 186 probes
2026-06-02 18:39:28,369 - cnv_pipe.batch.run_model.cluster76 - INFO - Child process finished cluster 76. Wrote cluster_76_samples.csv and cluster_76_params.csv
2026-06-02 18:39:28,372 - cnv_pipe.batch.run_model - INFO - Cluster 76 finished in 197.88 seconds. Status: SUCCESS